Sequence belongs on the specimen, not on a separate island.
APHL and WHO both treat genomics as core public-health capacity. Salus ties those pipelines to accession, coding, and human-gated reporting.
Clinical NGS next to the accession
Metagenomic and targeted NGS stay on the specimen. Organism calls get SNOMED when identified. Pipeline version is part of the method, not a side laptop.
AMR markers
blaKPC, blaNDM, mecA and the rest of the catalog pack report as Detected/Not detected plus the organism. Isolate submission notes stay on the card.
Wastewater and genomic epidemiology
Community signals are labeled as surveillance, never as a patient result. Lineage context can inform a surge pack without becoming an ELR.
PulseNet / outbreak linkage
The hub records that a sequence was generated and where it went. It does not replace the national PulseNet workflow. It stops the FASTQ from living only in email.
WHO and IHR-relevant threats
H5, viral hemorrhagic fevers, and other IHR events carry notification notes so a director sees the international obligation next to the state one.
What this is not
Salus does not claim to assemble Nanopore or Illumina reads inside the marketing site. Orchestration and lineage calling run in the jurisdiction tenant, under CLIA validation, with a human on release.
Start from the living cards
The catalog already carries IHR and surveillance notes. Native bioinformatic orchestration is a jurisdiction-tenant job under CLIA, listed honestly as a deepening module.